Locus 7857

Sequence ID 3R_DroMel_CAF1
Location 21,028,579 – 21,028,677
Length 98
Max. P 0.881315
window12658

overview

Window 8

Location 21,028,579 – 21,028,677
Length 98
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 71.95
Mean single sequence MFE -17.77
Consensus MFE -7.17
Energy contribution -7.77
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.40
SVM decision value 0.92
SVM RNA-class probability 0.881315
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21028579 98 + 27905053
AAAAUGCAAUAAAUAACU-----------AUA-----UGGAUGCAAAUAUUCUAUUGUUAUAGCAAAGUGCUGAAAUUUCAAAAUUUCAAAAUAAAGCCC----AGCUGUCAGCACCA
....(((.....(((((.-----------..(-----((((.........))))).))))).)))..(((((((((((....)))))).......(((..----.)))...))))).. ( -15.80)
>DroSec_CAF1 33376 88 + 1
AAAAUGCAAUAAAUAACU-----------AUA-----UGGACGCAA--AUUCCAUUGUUAUAGCAAAGUGCUGAAAUUU--------CAAAAUAAAGCCC----AGCUGUCAGCACCA
....(((.....(((((.-----------..(-----((((.....--..))))).))))).)))..(((((((.....--------........(((..----.))).))))))).. ( -18.14)
>DroSim_CAF1 33530 97 + 1
AAAAUGCAAUAAAUAACU-----------AUA-----UGGAUGCAAA-AUUUCAUUGUUAUAGCAAAGUGCCGAAAUUUCAAAAUUUCAAAAUAAAGCCC----AGCUGUCAGCACCA
....(((.....(((((.-----------..(-----((((......-..))))).))))).)))..((((.((((((....)))))).......(((..----.)))....)))).. ( -14.70)
>DroEre_CAF1 37039 99 + 1
AAAAUGCAAUGAAUUGCU-----------UAA-----CGUAUGCAA--AUUCCACUGCCAUAACGAAGUGCUGAAAUGUUG-AAUUUCAAAAUAAAGCCCAUGCAGCUGUCAGCACCA
.....(((..(((((((.-----------...-----.....)).)--))))...))).........(((((((...((((-.....................))))..))))))).. ( -19.20)
>DroYak_CAF1 37091 103 + 1
AAAAAGUAAAAAAGUGCAAUAAAUGCAUCUAGCAGUUGGUAUGCAA--AAUUC--------AACGAAGCGCUGAAAUGUUG-AAUUUGAAAAGAAAGCCC----AACUGUCAGCACCA
.............(((((.....)))))((..(((((((...((.(--(((((--------((((...........)))))-))))).........))))----)))))..))..... ( -21.00)
>consensus
AAAAUGCAAUAAAUAACU___________AUA_____UGGAUGCAA__AUUCCAUUGUUAUAGCAAAGUGCUGAAAUUUCA_AAUUUCAAAAUAAAGCCC____AGCUGUCAGCACCA
...................................................................(((((((.....................(((.......))).))))))).. ( -7.17 =  -7.77 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:27 2006